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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcttagtttcctagcattatcttttgcaatttgtacatgtggtcttcgttacattgttcttacattatccctgtttatatatattcatgctgttttgtagGCTGTGATGGAGATATATAACATGTACAGAGCTCGGTTATCATCACAGAACACTGTGATCCTCTTTGAGGCATTGCACACTGTTGCTACTCATGCTCATA

Basic information

species Oryza sativa
transcript LOC_Os03g14260.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g14260.1 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G058870_T01 (Zea mays), 3'ss of exon 10
---tcttagtttcctagcattatcttttgcaatttgtacatgtggtcttcgttacattgttcttacattatccctgtttatatatattcatgctgttttgtagGCTGTGATGGAGATATATAACATGTACAGAGCTCGGTTATCATCACAGAACACTGTGATCCTCTTTGAGGCATTGCACACTGTTGCTACTCATGCTCATA
   |  || |||    ||| ||||   | | |    |     ||||  |   |||||            | |  | ||||  | ||| |||    || ||||||||||||||||| ||||||||||||||||||  | ||||||| |||||||||| || |||||||| || || ||||| ||||||||  | |||||||| |
caattgtaatttgtatgcaatatcaacttctaaaaatgaggttggtaatttctacatga---cagtgccagctgtatttacttttatgcatttctttgtgtagGCTGTGATGGAGGTATATAACATGTACAGAGGACAGTTATCAGCACAGAACACAGTAATCCTCTTCGAAGCCTTGCATACTGTTGCCGCACATGCTCACA
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|58680149|gb|CK068836.1|CK068836
EST:     CAATTGGTGATGCCAAGTGCCGGGCTGCTGTCCAACTCCTATTGATTCAG                         GCTGTGATGGAGATATATAACATGTACAGAGCTCGGCTATCATCACAGAAC
genomic: CAATTGGTGATGCCAAGTGCCGGGCTGCTGTCCAACTCCTATTGATTCAGgtatgcacta ... tgttttgtagGCTGTGATGGAGATATATAACATGTACAGAGCTCGGTTATCATCACAGAAC
EST: gi|58679285|gb|CK067972.1|CK067972
EST:     CAATTGGTGATGCCAATTGCCGGGCTGCTGTCCAACTCCTATTGATTCAG                         GCTGTGATGGAGATATATAACATGTACAGAGCTCGGCTATCATCACAGAAC
genomic: CAATTGGTGATGCCAAGTGCCGGGCTGCTGTCCAACTCCTATTGATTCAGgtatgcacta ... tgttttgtagGCTGTGATGGAGATATATAACATGTACAGAGCTCGGTTATCATCACAGAAC
EST: gi|58653996|gb|CK042676.1|CK042676
EST:     CAATTGGTGATGCCAAGTGCCGGGCTGCTGTCCAACTCCTATTGATTCAG                         GCTGTGATGGAGATATATAACATGT
genomic: CAATTGGTGATGCCAAGTGCCGGGCTGCTGTCCAACTCCTATTGATTCAGgtatgcacta ... tgttttgtagGCTGTGATGGAGATATATAACATGT
EST: gi|58684141|gb|CK072828.1|CK072828
EST:     CAATTGGTGATGCCAAGTGCCGGGCTGCTGTCCAACTCCTATTGATTCAG                         GCTGTGATGGAGATATATAACATGTACAGAGCTCGGCTATCATCACAGAAC
genomic: CAATTGGTGATGCCAAGTGCCGGGCTGCTGTCCAACTCCTATTGATTCAGgtatgcacta ... tgttttgtagGCTGTGATGGAGATATATAACATGTACAGAGCTCGGTTATCATCACAGAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgttacattgttcttacattatccctgtttatatatattcatgctgttttgtagGCTGTGATGGAGATATATAACATGTACAGAGCTCGGTTATCATCACAGAACACTGTGATCCTCTTTGAGGCATTGCACACTGTTGCTACTCATGCTCATA
           ttcttac  putative branch site (score: 2)
                                            ctgtttt  putative PPT
                          tgtttatatatattca  TA-rich tract